- Add `has_audio_input` flag to agent message handling and propagate through processing pipeline
- Structure agent input payloads to include `input.mode` and `input.transcribed` for voice messages
- Update prompts and tool descriptions to clarify that `send_voice_message` and `ask_user_choice` are terminal tools and should not be followed by redundant text replies
- Enhance tests to cover voice input metadata propagation and prompt updates
- Implement batch AI re-organize endpoint for transfer history with progress tracking
- Add batch_manual_transfer_redo system task template and prompt generation
- Refactor agent_manager to support generic background prompt execution
- Add AIRecommendChain for search result recommendation using agent background prompt
- Update search endpoints to use new AIRecommendChain and remove legacy code
- Enhance test cases for batch manual transfer redo
- Minor code cleanup and style fixes
- Add structured runtime config files (AGENT_PROFILE.md, AGENT_WORKFLOW.md, AGENT_HOOKS.md, USER_PREFERENCES.md, SYSTEM_TASKS.md, CURRENT_PERSONA.md) for persona, workflow, hooks, and system tasks
- Implement agent_runtime_manager to load, validate, and render runtime config and system task prompts
- Refactor agent initialization to use runtime-managed directories for skills, jobs, memory, and activity logs
- Add AgentHooksMiddleware for structured pre/in/post hooks injection
- Replace hardcoded system task prompts with template-driven rendering from SYSTEM_TASKS.md
- Update tests to cover runtime config loading, migration, and system task prompt rendering
- Update .gitignore to exclude config/agent/
